Keith Satterley wrote: > Hi Scott, > > Sean Davis responded to me on Bioc-devel about this problem. However the > Bioc-devel archives report his email as " > > "An embedded and charset-unspecified text was scrubbed..." > > so I guess that is why google doesn't find it. His response on > Nov-25-2009 was: > > On Mon, Nov 23, 2009 at 6:33 PM, Keith Satterley <keith at="" wehi.edu.au=""> <mailto:keith at="" wehi.edu.au="">> wrote: > > Hi Sean, > > I was reading your response to Amit Mandal's query re normalization > of affy data and it prompted me to check my installation of GEOquery > on R-2.10.0 on my Windows box and of course you know that it is not > available at the moment. > > Wondering if it maybe come available soon as I generally work on > Windows and have used your package very successfully on R-2.9.2, > > > I've made some changes to the vignette in the hopes that it will build > fast enough to become available again. I don't have any idea why the > Windows build is slower than that on Linux or MacOS, but that appears to > be the case, resulting in a timeout in the vignette build process. In > the meantime, the package can almost certainly be installed from source > on Windows IF you have the capability of doing that. And having the capability to build packages on Windows is now almost trivial. See http://cran.r-project.org/bin/windows/base/rw-FAQ.html#Can-I-install- packages-into-libraries-in-this-version_003f for more information. Best, Jim > > Sean > > Hope that helps, > > cheers, > > Keith > > ======================== > Keith Satterley > Bioinformatics Division > The Walter and Eliza Hall Institute of Medical Research > Parkville, Melbourne, > Victoria, Australia > email:keith at wehi.edu.au > ======================= > > > > Scott Markel wrote: >> I attempted to use GEOquery in R 2.10.0 today. I'm running Windows XP. >> >> ====================== >> >>> source("http://bioconductor.org/biocLite.R") >>> biocLite("GEOquery") >>> >> Using R version 2.10.0, biocinstall version 2.5.8. >> Installing Bioconductor version 2.5 packages: >> [1] "GEOquery" >> Please wait... >> >> Warning message: >> In getDependencies(pkgs, dependencies, available, lib) : >> package 'GEOquery' is not available >> ====================== >> >> Checking the GEOquery package page >> (http://bioconductor.org/packages/2.5/bioc/html/GEOquery.html) >> I see that the Windows binary is indeed listed as "Not available". >> Checking the vignette, mailing list, and a Google search didn't >> provide any 2.10.0-specific information that I saw. >> >> Are there plans for releasing a new Windows binary for GEOquery? >> >> Scott >> >> >>> sessionInfo() >>> >> R version 2.10.0 (2009-10-26) i386-pc-mingw32 >> locale: >> [1] LC_COLLATE=English_United States.1252 [2] LC_CTYPE=English_United >> States.1252 [3] LC_MONETARY=English_United States.1252 >> [4] LC_NUMERIC=C [5] LC_TIME=English_United >> States.1252 >> attached base packages: >> [1] stats graphics grDevices utils datasets methods base >> loaded via a namespace (and not attached): >> [1] tools_2.10.0 >> >> >> Scott Markel, Ph.D. >> Principal Bioinformatics Architect email: smarkel at accelrys.com >> Accelrys (SciTegic R&D) mobile: +1 858 205 3653 >> 10188 Telesis Court, Suite 100 voice: +1 858 799 5603 >> San Diego, CA 92121 fax: +1 858 799 5222 >> USA web: http://www.accelrys.com >> >> http://www.linkedin.com/in/smarkel >> Vice President, Board of Directors: >> International Society for Computational Biology >> Chair: ISCB Publications Committee >> Associate Editor: PLoS Computational Biology >> Editorial Board: Briefings in Bioinformatics >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at stat.math.ethz.ch >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > ______________________________________________________________________ > The information in this email is confidential and intend...{{dropped:4}} > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician Douglas Lab University of Michigan Department of Human Genetics 5912 Buhl 1241 E. Catherine St. Ann Arbor MI 48109-5618 734-615-7826 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues